Package evaluation of OnlinePCA on Julia 1.11.5 (ca6e7bd5b0*) started at 2025-07-02T01:04:51.012 ################################################################################ # Set-up # Installing PkgEval dependencies (TestEnv)... Set-up completed after 6.56s ################################################################################ # Installation # Installing OnlinePCA... Resolving package versions... Installed Crayons ───────────────────── v4.1.1 Installed IrrationalConstants ───────── v0.2.4 Installed MPICH_jll ─────────────────── v4.3.1+0 Installed MatrixMarket ──────────────── v0.5.2 Installed ColorTypes ────────────────── v0.12.1 Installed WebSockets ────────────────── v1.6.0 Installed libaec_jll ────────────────── v1.1.3+0 Installed Kaleido_jll ───────────────── v0.2.1+0 Installed PlotlyJS ──────────────────── v0.18.16 Installed PlotlyKaleido ─────────────── v2.3.0 Installed Rmath ─────────────────────── v0.8.0 Installed HypergeometricFunctions ───── v0.3.28 Installed JSON ──────────────────────── v0.21.4 Installed PrettyTables ──────────────── v2.4.0 Installed JSExpr ────────────────────── v0.5.4 Installed CSV ───────────────────────── v0.10.15 Installed Zstd_jll ──────────────────── v1.5.7+1 Installed PtrArrays ─────────────────── v1.3.0 Installed StatsFuns ─────────────────── v1.5.0 Installed Preferences ───────────────── v1.4.3 Installed TableTraits ───────────────── v1.0.1 Installed TensorCore ────────────────── v0.1.1 Installed Blink ─────────────────────── v0.12.9 Installed BitFlags ──────────────────── v0.1.9 Installed OpenSSL_jll ───────────────── v3.5.0+0 Installed LoggingExtras ─────────────── v1.1.0 Installed Mustache ──────────────────── v1.0.21 Installed PlotlyBase ────────────────── v0.8.21 Installed SpecialFunctions ──────────── v2.5.1 Installed Hwloc_jll ─────────────────── v2.12.1+0 Installed SimpleBufferStream ────────── v1.2.0 Installed Parsers ───────────────────── v2.8.3 Installed SentinelArrays ────────────── v1.4.8 Installed Tables ────────────────────── v1.12.1 Installed PDMats ────────────────────── v0.11.35 Installed DataAPI ───────────────────── v1.16.0 Installed PooledArrays ──────────────── v1.4.3 Installed FixedPointNumbers ─────────── v0.8.5 Installed MicrosoftMPI_jll ──────────── v10.1.4+3 Installed OpenMPI_jll ───────────────── v5.0.8+0 Installed FunctionalCollections ─────── v0.5.0 Installed InlineStrings ─────────────── v1.4.4 Installed Pidfile ───────────────────── v1.3.0 Installed ConcurrentUtilities ───────── v2.5.0 Installed IteratorInterfaceExtensions ─ v1.0.0 Installed ProgressMeter ─────────────── v1.10.4 Installed JLLWrappers ───────────────── v1.7.0 Installed PrecompileTools ───────────── v1.2.1 Installed Mux ───────────────────────── v1.0.2 Installed ColorSchemes ──────────────── v3.29.0 Installed ColorVectorSpace ──────────── v0.11.0 Installed DataValueInterfaces ───────── v1.0.0 Installed WorkerUtilities ───────────── v1.6.1 Installed OrderedCollections ────────── v1.8.1 Installed URIs ──────────────────────── v1.6.1 Installed TranscodingStreams ────────── v0.11.3 Installed LaTeXStrings ──────────────── v1.4.0 Installed OpenSSL ───────────────────── v1.5.0 Installed InvertedIndices ───────────── v1.3.1 Installed DelimitedFiles ────────────── v1.9.1 Installed AssetRegistry ─────────────── v0.1.0 Installed HTTP ──────────────────────── v1.10.17 Installed FilePathsBase ─────────────── v0.9.24 Installed DataFrames ────────────────── v1.7.0 Installed HDF5 ──────────────────────── v0.17.2 Installed FillArrays ────────────────── v1.13.0 Installed Reexport ──────────────────── v1.2.2 Installed QuadGK ────────────────────── v2.11.2 Installed MbedTLS ───────────────────── v1.1.9 Installed Rmath_jll ─────────────────── v0.5.1+0 Installed Statistics ────────────────── v1.11.1 Installed WebIO ─────────────────────── v0.8.21 Installed MPIPreferences ────────────── v0.1.11 Installed GLM ───────────────────────── v1.9.0 Installed CodecZstd ─────────────────── v0.8.6 Installed MPItrampoline_jll ─────────── v5.5.4+0 Installed StatsModels ───────────────── v0.7.4 Installed DataStructures ────────────── v0.18.22 Installed Hiccup ────────────────────── v0.2.2 Installed Colors ────────────────────── v0.13.1 Installed Requires ──────────────────── v1.3.1 Installed LogExpFunctions ───────────── v0.3.29 Installed WeakRefStrings ────────────── v1.4.2 Installed ShiftedArrays ─────────────── v2.0.0 Installed MacroTools ────────────────── v0.5.16 Installed AliasTables ───────────────── v1.1.3 Installed OpenSpecFun_jll ───────────── v0.5.6+0 Installed Compat ────────────────────── v4.17.0 Installed Observables ───────────────── v0.5.5 Installed StatsAPI ──────────────────── v1.7.1 Installed Distributions ─────────────── v0.25.120 Installed Lazy ──────────────────────── v0.15.1 Installed Parameters ────────────────── v0.12.3 Installed UnPack ────────────────────── v1.0.2 Installed ArgParse ──────────────────── v1.2.0 Installed CodecZlib ─────────────────── v0.7.8 Installed Missings ──────────────────── v1.2.0 Installed StringManipulation ────────── v0.4.1 Installed HDF5_jll ──────────────────── v1.14.6+0 Installed StatsBase ─────────────────── v0.34.5 Installed SortingAlgorithms ─────────── v1.2.1 Installed TextWrap ──────────────────── v1.0.2 Installed OnlinePCA ─────────────────── v0.3.10 Installed ExceptionUnwrapping ───────── v0.1.11 Installed DocStringExtensions ───────── v0.9.5 Installed Widgets ───────────────────── v0.6.7 Updating `~/.julia/environments/v1.11/Project.toml` [975b03d1] + OnlinePCA v0.3.10 Updating `~/.julia/environments/v1.11/Manifest.toml` [66dad0bd] + AliasTables v1.1.3 [c7e460c6] + ArgParse v1.2.0 [bf4720bc] + AssetRegistry v0.1.0 [d1d4a3ce] + BitFlags v0.1.9 [ad839575] + Blink v0.12.9 [336ed68f] + CSV v0.10.15 [944b1d66] + CodecZlib v0.7.8 [6b39b394] + CodecZstd v0.8.6 [35d6a980] + ColorSchemes v3.29.0 [3da002f7] + ColorTypes v0.12.1 [c3611d14] + ColorVectorSpace v0.11.0 [5ae59095] + Colors v0.13.1 [34da2185] + Compat v4.17.0 [f0e56b4a] + ConcurrentUtilities v2.5.0 [a8cc5b0e] + Crayons v4.1.1 [9a962f9c] + DataAPI v1.16.0 [a93c6f00] + DataFrames v1.7.0 [864edb3b] + DataStructures v0.18.22 [e2d170a0] + DataValueInterfaces v1.0.0 [8bb1440f] + DelimitedFiles v1.9.1 [31c24e10] + Distributions v0.25.120 [ffbed154] + DocStringExtensions v0.9.5 [460bff9d] + ExceptionUnwrapping v0.1.11 [48062228] + FilePathsBase v0.9.24 [1a297f60] + FillArrays v1.13.0 [53c48c17] + FixedPointNumbers v0.8.5 [de31a74c] + FunctionalCollections v0.5.0 [38e38edf] + GLM v1.9.0 [f67ccb44] + HDF5 v0.17.2 [cd3eb016] + HTTP v1.10.17 [9fb69e20] + Hiccup v0.2.2 [34004b35] + HypergeometricFunctions v0.3.28 [842dd82b] + InlineStrings v1.4.4 [41ab1584] + InvertedIndices v1.3.1 [92d709cd] + IrrationalConstants v0.2.4 [82899510] + IteratorInterfaceExtensions v1.0.0 [692b3bcd] + JLLWrappers v1.7.0 [97c1335a] + JSExpr v0.5.4 [682c06a0] + JSON v0.21.4 [b964fa9f] + LaTeXStrings v1.4.0 [50d2b5c4] + Lazy v0.15.1 [2ab3a3ac] + LogExpFunctions v0.3.29 [e6f89c97] + LoggingExtras v1.1.0 [3da0fdf6] + MPIPreferences v0.1.11 [1914dd2f] + MacroTools v0.5.16 [4d4711f2] + MatrixMarket v0.5.2 [739be429] + MbedTLS v1.1.9 [e1d29d7a] + Missings v1.2.0 [ffc61752] + Mustache v1.0.21 [a975b10e] + Mux v1.0.2 [510215fc] + Observables v0.5.5 [975b03d1] + OnlinePCA v0.3.10 [4d8831e6] + OpenSSL v1.5.0 [bac558e1] + OrderedCollections v1.8.1 [90014a1f] + PDMats v0.11.35 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.8.3 [fa939f87] + Pidfile v1.3.0 [a03496cd] + PlotlyBase v0.8.21 [f0f68f2c] + PlotlyJS v0.18.16 [f2990250] + PlotlyKaleido v2.3.0 [2dfb63ee] + PooledArrays v1.4.3 ⌅ [aea7be01] + PrecompileTools v1.2.1 [21216c6a] + Preferences v1.4.3 [08abe8d2] + PrettyTables v2.4.0 [92933f4c] + ProgressMeter v1.10.4 [43287f4e] + PtrArrays v1.3.0 [1fd47b50] + QuadGK v2.11.2 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.1 [79098fc4] + Rmath v0.8.0 [91c51154] + SentinelArrays v1.4.8 [1277b4bf] + ShiftedArrays v2.0.0 [777ac1f9] + SimpleBufferStream v1.2.0 [a2af1166] + SortingAlgorithms v1.2.1 [276daf66] + SpecialFunctions v2.5.1 [10745b16] + Statistics v1.11.1 [82ae8749] + StatsAPI v1.7.1 [2913bbd2] + StatsBase v0.34.5 [4c63d2b9] + StatsFuns v1.5.0 [3eaba693] + StatsModels v0.7.4 [892a3eda] + StringManipulation v0.4.1 [3783bdb8] + TableTraits v1.0.1 [bd369af6] + Tables v1.12.1 [62fd8b95] + TensorCore v0.1.1 [b718987f] + TextWrap v1.0.2 [3bb67fe8] + TranscodingStreams v0.11.3 [5c2747f8] + URIs v1.6.1 [3a884ed6] + UnPack v1.0.2 [ea10d353] + WeakRefStrings v1.4.2 [0f1e0344] + WebIO v0.8.21 [104b5d7c] + WebSockets v1.6.0 [cc8bc4a8] + Widgets v0.6.7 [76eceee3] + WorkerUtilities v1.6.1 [0234f1f7] + HDF5_jll v1.14.6+0 [e33a78d0] + Hwloc_jll v2.12.1+0 [f7e6163d] + Kaleido_jll v0.2.1+0 [7cb0a576] + MPICH_jll v4.3.1+0 [f1f71cc9] + MPItrampoline_jll v5.5.4+0 [9237b28f] + MicrosoftMPI_jll v10.1.4+3 [fe0851c0] + OpenMPI_jll v5.0.8+0 [458c3c95] + OpenSSL_jll v3.5.0+0 [efe28fd5] + OpenSpecFun_jll v0.5.6+0 [f50d1b31] + Rmath_jll v0.5.1+0 [3161d3a3] + Zstd_jll v1.5.7+1 [477f73a3] + libaec_jll v1.1.3+0 [0dad84c5] + ArgTools v1.1.2 [56f22d72] + Artifacts v1.11.0 [2a0f44e3] + Base64 v1.11.0 [ade2ca70] + Dates v1.11.0 [8ba89e20] + Distributed v1.11.0 [f43a241f] + Downloads v1.6.0 [7b1f6079] + FileWatching v1.11.0 [9fa8497b] + Future v1.11.0 [b77e0a4c] + InteractiveUtils v1.11.0 [4af54fe1] + LazyArtifacts v1.11.0 [b27032c2] + LibCURL v0.6.4 [76f85450] + LibGit2 v1.11.0 [8f399da3] + Libdl v1.11.0 [37e2e46d] + LinearAlgebra v1.11.0 [56ddb016] + Logging v1.11.0 [d6f4376e] + Markdown v1.11.0 [a63ad114] + Mmap v1.11.0 [ca575930] + NetworkOptions v1.2.0 [44cfe95a] + Pkg v1.11.0 [de0858da] + Printf v1.11.0 [3fa0cd96] + REPL v1.11.0 [9a3f8284] + Random v1.11.0 [ea8e919c] + SHA v0.7.0 [9e88b42a] + Serialization v1.11.0 [6462fe0b] + Sockets v1.11.0 [2f01184e] + SparseArrays v1.11.0 [f489334b] + StyledStrings v1.11.0 [4607b0f0] + SuiteSparse [fa267f1f] + TOML v1.0.3 [a4e569a6] + Tar v1.10.0 [8dfed614] + Test v1.11.0 [cf7118a7] + UUIDs v1.11.0 [4ec0a83e] + Unicode v1.11.0 [e66e0078] + CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] + LibCURL_jll v8.6.0+0 [e37daf67] + LibGit2_jll v1.7.2+0 [29816b5a] + LibSSH2_jll v1.11.0+1 [c8ffd9c3] + MbedTLS_jll v2.28.6+0 [14a3606d] + MozillaCACerts_jll v2023.12.12 [4536629a] + OpenBLAS_jll v0.3.27+1 [05823500] + OpenLibm_jll v0.8.5+0 [bea87d4a] + SuiteSparse_jll v7.7.0+0 [83775a58] + Zlib_jll v1.2.13+1 [8e850b90] + libblastrampoline_jll v5.11.0+0 [8e850ede] + nghttp2_jll v1.59.0+0 [3f19e933] + p7zip_jll v17.4.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. To see why use `status --outdated -m` Building WebIO ───→ `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/0eef0765186f7452e52236fa42ca8c9b3c11c6e3/build.log` Building PlotlyJS → `~/.julia/scratchspaces/44cfe95a-1eb2-52ea-b672-e2afdf69b78f/b816b0f301b074e002476159a9ada5691eebaf61/build.log` Installation completed after 51.3s ################################################################################ # Precompilation # Precompiling PkgEval dependencies... Precompiling project... 1540.9 ms ✓ TestEnv 1 dependency successfully precompiled in 2 seconds. 23 already precompiled. Precompiling package dependencies... Precompilation completed after 282.52s ################################################################################ # Testing # Testing OnlinePCA ┌ Warning: Could not use exact versions of packages in manifest, re-resolving └ @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:1924 Status `/tmp/jl_WgIr8b/Project.toml` [c7e460c6] ArgParse v1.2.0 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.120 [1a297f60] FillArrays v1.13.0 [4d4711f2] MatrixMarket v0.5.2 [975b03d1] OnlinePCA v0.3.10 [10745b16] Statistics v1.11.1 [37e2e46d] LinearAlgebra v1.11.0 [2f01184e] SparseArrays v1.11.0 [8dfed614] Test v1.11.0 Status `/tmp/jl_WgIr8b/Manifest.toml` [66dad0bd] AliasTables v1.1.3 [c7e460c6] ArgParse v1.2.0 [bf4720bc] AssetRegistry v0.1.0 [d1d4a3ce] BitFlags v0.1.9 [ad839575] Blink v0.12.9 [336ed68f] CSV v0.10.15 [944b1d66] CodecZlib v0.7.8 [6b39b394] CodecZstd v0.8.6 [35d6a980] ColorSchemes v3.29.0 [3da002f7] ColorTypes v0.12.1 [c3611d14] ColorVectorSpace v0.11.0 [5ae59095] Colors v0.13.1 [34da2185] Compat v4.17.0 [f0e56b4a] ConcurrentUtilities v2.5.0 [a8cc5b0e] Crayons v4.1.1 [9a962f9c] DataAPI v1.16.0 [a93c6f00] DataFrames v1.7.0 [864edb3b] DataStructures v0.18.22 [e2d170a0] DataValueInterfaces v1.0.0 [8bb1440f] DelimitedFiles v1.9.1 [31c24e10] Distributions v0.25.120 [ffbed154] DocStringExtensions v0.9.5 [460bff9d] ExceptionUnwrapping v0.1.11 [48062228] FilePathsBase v0.9.24 [1a297f60] FillArrays v1.13.0 [53c48c17] FixedPointNumbers v0.8.5 [de31a74c] FunctionalCollections v0.5.0 [38e38edf] GLM v1.9.0 [f67ccb44] HDF5 v0.17.2 [cd3eb016] HTTP v1.10.17 [9fb69e20] Hiccup v0.2.2 [34004b35] HypergeometricFunctions v0.3.28 [842dd82b] InlineStrings v1.4.4 [41ab1584] InvertedIndices v1.3.1 [92d709cd] IrrationalConstants v0.2.4 [82899510] IteratorInterfaceExtensions v1.0.0 [692b3bcd] JLLWrappers v1.7.0 [97c1335a] JSExpr v0.5.4 [682c06a0] JSON v0.21.4 [b964fa9f] LaTeXStrings v1.4.0 [50d2b5c4] Lazy v0.15.1 [2ab3a3ac] LogExpFunctions v0.3.29 [e6f89c97] LoggingExtras v1.1.0 [3da0fdf6] MPIPreferences v0.1.11 [1914dd2f] MacroTools v0.5.16 [4d4711f2] MatrixMarket v0.5.2 [739be429] MbedTLS v1.1.9 [e1d29d7a] Missings v1.2.0 [ffc61752] Mustache v1.0.21 [a975b10e] Mux v1.0.2 [510215fc] Observables v0.5.5 [975b03d1] OnlinePCA v0.3.10 [4d8831e6] OpenSSL v1.5.0 [bac558e1] OrderedCollections v1.8.1 [90014a1f] PDMats v0.11.35 [d96e819e] Parameters v0.12.3 [69de0a69] Parsers v2.8.3 [fa939f87] Pidfile v1.3.0 [a03496cd] PlotlyBase v0.8.21 [f0f68f2c] PlotlyJS v0.18.16 [f2990250] PlotlyKaleido v2.3.0 [2dfb63ee] PooledArrays v1.4.3 ⌅ [aea7be01] PrecompileTools v1.2.1 [21216c6a] Preferences v1.4.3 [08abe8d2] PrettyTables v2.4.0 [92933f4c] ProgressMeter v1.10.4 [43287f4e] PtrArrays v1.3.0 [1fd47b50] QuadGK v2.11.2 [189a3867] Reexport v1.2.2 [ae029012] Requires v1.3.1 [79098fc4] Rmath v0.8.0 [91c51154] SentinelArrays v1.4.8 [1277b4bf] ShiftedArrays v2.0.0 [777ac1f9] SimpleBufferStream v1.2.0 [a2af1166] SortingAlgorithms v1.2.1 [276daf66] SpecialFunctions v2.5.1 [10745b16] Statistics v1.11.1 [82ae8749] StatsAPI v1.7.1 [2913bbd2] StatsBase v0.34.5 [4c63d2b9] StatsFuns v1.5.0 [3eaba693] StatsModels v0.7.4 [892a3eda] StringManipulation v0.4.1 [3783bdb8] TableTraits v1.0.1 [bd369af6] Tables v1.12.1 [62fd8b95] TensorCore v0.1.1 [b718987f] TextWrap v1.0.2 [3bb67fe8] TranscodingStreams v0.11.3 [5c2747f8] URIs v1.6.1 [3a884ed6] UnPack v1.0.2 [ea10d353] WeakRefStrings v1.4.2 [0f1e0344] WebIO v0.8.21 [104b5d7c] WebSockets v1.6.0 [cc8bc4a8] Widgets v0.6.7 [76eceee3] WorkerUtilities v1.6.1 [0234f1f7] HDF5_jll v1.14.6+0 [e33a78d0] Hwloc_jll v2.12.1+0 [f7e6163d] Kaleido_jll v0.2.1+0 [7cb0a576] MPICH_jll v4.3.1+0 [f1f71cc9] MPItrampoline_jll v5.5.4+0 [9237b28f] MicrosoftMPI_jll v10.1.4+3 [fe0851c0] OpenMPI_jll v5.0.8+0 [458c3c95] OpenSSL_jll v3.5.0+0 [efe28fd5] OpenSpecFun_jll v0.5.6+0 [f50d1b31] Rmath_jll v0.5.1+0 [3161d3a3] Zstd_jll v1.5.7+1 [477f73a3] libaec_jll v1.1.3+0 [0dad84c5] ArgTools v1.1.2 [56f22d72] Artifacts v1.11.0 [2a0f44e3] Base64 v1.11.0 [ade2ca70] Dates v1.11.0 [8ba89e20] Distributed v1.11.0 [f43a241f] Downloads v1.6.0 [7b1f6079] FileWatching v1.11.0 [9fa8497b] Future v1.11.0 [b77e0a4c] InteractiveUtils v1.11.0 [4af54fe1] LazyArtifacts v1.11.0 [b27032c2] LibCURL v0.6.4 [76f85450] LibGit2 v1.11.0 [8f399da3] Libdl v1.11.0 [37e2e46d] LinearAlgebra v1.11.0 [56ddb016] Logging v1.11.0 [d6f4376e] Markdown v1.11.0 [a63ad114] Mmap v1.11.0 [ca575930] NetworkOptions v1.2.0 [44cfe95a] Pkg v1.11.0 [de0858da] Printf v1.11.0 [3fa0cd96] REPL v1.11.0 [9a3f8284] Random v1.11.0 [ea8e919c] SHA v0.7.0 [9e88b42a] Serialization v1.11.0 [6462fe0b] Sockets v1.11.0 [2f01184e] SparseArrays v1.11.0 [f489334b] StyledStrings v1.11.0 [4607b0f0] SuiteSparse [fa267f1f] TOML v1.0.3 [a4e569a6] Tar v1.10.0 [8dfed614] Test v1.11.0 [cf7118a7] UUIDs v1.11.0 [4ec0a83e] Unicode v1.11.0 [e66e0078] CompilerSupportLibraries_jll v1.1.1+0 [deac9b47] LibCURL_jll v8.6.0+0 [e37daf67] LibGit2_jll v1.7.2+0 [29816b5a] LibSSH2_jll v1.11.0+1 [c8ffd9c3] MbedTLS_jll v2.28.6+0 [14a3606d] MozillaCACerts_jll v2023.12.12 [4536629a] OpenBLAS_jll v0.3.27+1 [05823500] OpenLibm_jll v0.8.5+0 [bea87d4a] SuiteSparse_jll v7.7.0+0 [83775a58] Zlib_jll v1.2.13+1 [8e850b90] libblastrampoline_jll v5.11.0+0 [8e850ede] nghttp2_jll v1.59.0+0 [3f19e933] p7zip_jll v17.4.0+2 Info Packages marked with ⌅ have new versions available but compatibility constraints restrict them from upgrading. Testing Running tests... /tmp/jl_pil1KR Running all tests... ####### Binarization of CSV (Julia API) ####### 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 ####### Binarization of CSV (Command line) ####### Precompiling OnlinePCA... 783.4 ms ✓ OrderedCollections 512.1 ms ✓ Observables 412.3 ms ✓ TextWrap 368.3 ms ✓ UnPack 1000.7 ms ✓ FillArrays 357.9 ms ✓ DataValueInterfaces 410.4 ms ✓ LaTeXStrings 415.6 ms ✓ InvertedIndices 370.3 ms ✓ Reexport 591.2 ms ✓ DocStringExtensions 710.9 ms ✓ InlineStrings 585.7 ms ✓ Statistics 1476.9 ms ✓ IrrationalConstants 739.1 ms ✓ URIs 358.8 ms ✓ IteratorInterfaceExtensions 395.5 ms ✓ SimpleBufferStream 470.9 ms ✓ TensorCore 410.5 ms ✓ DataAPI 475.9 ms ✓ WorkerUtilities 446.6 ms ✓ StatsAPI 1691.2 ms ✓ Crayons 415.3 ms ✓ BitFlags 3757.8 ms ✓ MacroTools 971.4 ms ✓ ProgressMeter 380.6 ms ✓ PtrArrays 860.1 ms ✓ ConcurrentUtilities 593.3 ms ✓ TranscodingStreams 427.9 ms ✓ ShiftedArrays 553.0 ms ✓ Requires 519.5 ms ✓ DelimitedFiles 2023.3 ms ✓ SentinelArrays 1248.0 ms ✓ MbedTLS 610.9 ms ✓ LoggingExtras 626.9 ms ✓ SuiteSparse 482.6 ms ✓ Pidfile 561.8 ms ✓ FunctionalCollections 607.0 ms ✓ ExceptionUnwrapping 625.6 ms ✓ Compat 834.6 ms ✓ Preferences 1001.0 ms ✓ ArgParse 491.4 ms ✓ Parameters 905.0 ms ✓ FillArrays → FillArraysSparseArraysExt 3711.8 ms ✓ FixedPointNumbers 714.7 ms ✓ Statistics → SparseArraysExt 486.7 ms ✓ FillArrays → FillArraysStatisticsExt 707.0 ms ✓ LogExpFunctions 407.0 ms ✓ TableTraits 513.5 ms ✓ Missings 547.0 ms ✓ PooledArrays 3171.9 ms ✓ Lazy 766.9 ms ✓ Hiccup 536.8 ms ✓ AliasTables 529.8 ms ✓ CodecZlib 919.1 ms ✓ PDMats 460.5 ms ✓ Compat → CompatLinearAlgebraExt 647.7 ms ✓ MPIPreferences 510.5 ms ✓ PrecompileTools 570.6 ms ✓ JLLWrappers 1723.6 ms ✓ ColorTypes 884.5 ms ✓ Tables 681.4 ms ✓ MatrixMarket 704.7 ms ✓ FillArrays → FillArraysPDMatsExt 1783.5 ms ✓ DataStructures 967.2 ms ✓ FilePathsBase 3163.0 ms ✓ StringManipulation 23966.1 ms ✓ Parsers 714.0 ms ✓ OpenSSL_jll 642.8 ms ✓ Kaleido_jll 654.4 ms ✓ Rmath_jll 571.9 ms ✓ MicrosoftMPI_jll 696.8 ms ✓ Zstd_jll 676.0 ms ✓ Hwloc_jll 1597.9 ms ✓ MPItrampoline_jll 669.7 ms ✓ OpenSpecFun_jll 714.3 ms ✓ libaec_jll 625.1 ms ✓ ColorTypes → StyledStringsExt 7391.5 ms ✓ Colors 3155.6 ms ✓ ColorVectorSpace 626.2 ms ✓ Mustache 620.2 ms ✓ SortingAlgorithms 1176.1 ms ✓ QuadGK 1165.2 ms ✓ FilePathsBase → FilePathsBaseTestExt 488.0 ms ✓ FilePathsBase → FilePathsBaseMmapExt 36473.2 ms ✓ PrettyTables 2087.2 ms ✓ JSON 554.2 ms ✓ InlineStrings → ParsersExt 2642.3 ms ✓ OpenSSL 960.7 ms ✓ Rmath 1230.7 ms ✓ CodecZstd 1594.5 ms ✓ OpenMPI_jll 1802.0 ms ✓ MPICH_jll 3150.8 ms ✓ SpecialFunctions 909.2 ms ✓ Widgets 3775.7 ms ✓ ColorSchemes 2444.9 ms ✓ StatsBase 84519.5 ms ✓ DataFrames 837.3 ms ✓ PlotlyKaleido 581.7 ms ✓ AssetRegistry 891.6 ms ✓ WeakRefStrings HTTP Waiting for background task / IO / timer. [pid 1497] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 1497] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 1497] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 1497] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 1497] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 1497] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. [pid 1497] waiting for IO to finish: Handle type uv_handle_t->data This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. 160585.1 ms ✓ HTTP 2499.7 ms ✓ HDF5_jll 1174.5 ms ✓ HypergeometricFunctions 764.9 ms ✓ ColorVectorSpace → SpecialFunctionsExt 6277.6 ms ✓ PlotlyBase 27879.7 ms ✓ CSV 1236.6 ms ✓ WebSockets 2941.2 ms ✓ Mux 10720.5 ms ✓ HDF5 2301.9 ms ✓ StatsFuns 5051.0 ms ✓ PlotlyBase → DataFramesExt 3556.6 ms ✓ WebIO 2991.1 ms ✓ StatsModels 5451.4 ms ✓ Distributions 2561.0 ms ✓ JSExpr 1380.7 ms ✓ Distributions → DistributionsTestExt 3117.0 ms ✓ GLM 3617.4 ms ✓ PlotlyBase → DistributionsExt 4501.3 ms ✓ Blink 7624.0 ms ✓ PlotlyJS 4369.7 ms ✓ PlotlyJS → CSVExt 6190.8 ms ✓ PlotlyJS → DataFramesExt 6091.5 ms ✓ OnlinePCA 122 dependencies successfully precompiled in 520 seconds. 37 already precompiled. 2 dependencies had output during precompilation: ┌ WebSockets │ WARNING: could not import Logging.termlength into WebSockets │ WARNING: could not import Logging.showvalue into WebSockets └ ┌ HTTP │ ┌ Info: Ignoring an error that occurred during the precompilation workload │ │ exception = │ │ HTTP.ConnectError for url = `https://localhost:57813`: TimeoutException: try_with_timeout timed out after 30.0 seconds │ │ Stacktrace: │ │ [1] (::HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}})(req::HTTP.Messages.Request; proxy::Nothing, socket_type::Type, socket_type_tls::Nothing, readtimeout::Int64, connect_timeout::Int64, logerrors::Bool, logtag::Nothing, closeimmediately::Bool, kw::@Kwargs{iofunction::Nothing, decompress::Nothing, verbose::Int64}) │ │ @ HTTP.ConnectionRequest ~/.julia/packages/HTTP/JcAHX/src/clientlayers/ConnectionRequest.jl:88 │ │ [2] connections │ │ @ ~/.julia/packages/HTTP/JcAHX/src/clientlayers/ConnectionRequest.jl:60 [inlined] │ │ [3] (::Base.var"#106#108"{Base.var"#106#107#109"{ExponentialBackOff, HTTP.RetryRequest.var"#2#5"{Int64, typeof(HTTP.RetryRequest.FALSE), HTTP.Messages.Request, Base.RefValue{Int64}}, HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}})(args::HTTP.Messages.Request; kwargs::@Kwargs{iofunction::Nothing, decompress::Nothing, verbose::Int64}) │ │ @ Base ./error.jl:300 │ │ [4] (::HTTP.RetryRequest.var"#manageretries#3"{HTTP.RetryRequest.var"#manageretries#1#4"{HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}})(req::HTTP.Messages.Request; retry::Bool, retries::Int64, retry_delays::ExponentialBackOff, retry_check::Function, retry_non_idempotent::Bool, kw::@Kwargs{iofunction::Nothing, decompress::Nothing, verbose::Int64}) │ │ @ HTTP.RetryRequest ~/.julia/packages/HTTP/JcAHX/src/clientlayers/RetryRequest.jl:75 │ │ [5] manageretries │ │ @ ~/.julia/packages/HTTP/JcAHX/src/clientlayers/RetryRequest.jl:30 [inlined] │ │ [6] (::HTTP.CookieRequest.var"#managecookies#4"{HTTP.CookieRequest.var"#managecookies#1#5"{HTTP.RetryRequest.var"#manageretries#3"{HTTP.RetryRequest.var"#manageretries#1#4"{HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}}}})(req::HTTP.Messages.Request; cookies::Bool, cookiejar::HTTP.Cookies.CookieJar, kw::@Kwargs{iofunction::Nothing, decompress::Nothing, verbose::Int64}) │ │ @ HTTP.CookieRequest ~/.julia/packages/HTTP/JcAHX/src/clientlayers/CookieRequest.jl:42 │ │ [7] managecookies │ │ @ ~/.julia/packages/HTTP/JcAHX/src/clientlayers/CookieRequest.jl:19 [inlined] │ │ [8] (::HTTP.HeadersRequest.var"#defaultheaders#2"{HTTP.HeadersRequest.var"#defaultheaders#1#3"{HTTP.CookieRequest.var"#managecookies#4"{HTTP.CookieRequest.var"#managecookies#1#5"{HTTP.RetryRequest.var"#manageretries#3"{HTTP.RetryRequest.var"#manageretries#1#4"{HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}}}}}})(req::HTTP.Messages.Request; iofunction::Nothing, decompress::Nothing, basicauth::Bool, detect_content_type::Bool, canonicalize_headers::Bool, kw::@Kwargs{verbose::Int64}) │ │ @ HTTP.HeadersRequest ~/.julia/packages/HTTP/JcAHX/src/clientlayers/HeadersRequest.jl:71 │ │ [9] defaultheaders │ │ @ ~/.julia/packages/HTTP/JcAHX/src/clientlayers/HeadersRequest.jl:14 [inlined] │ │ [10] (::HTTP.RedirectRequest.var"#redirects#3"{HTTP.RedirectRequest.var"#redirects#1#4"{HTTP.HeadersRequest.var"#defaultheaders#2"{HTTP.HeadersRequest.var"#defaultheaders#1#3"{HTTP.CookieRequest.var"#managecookies#4"{HTTP.CookieRequest.var"#managecookies#1#5"{HTTP.RetryRequest.var"#manageretries#3"{HTTP.RetryRequest.var"#manageretries#1#4"{HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}}}}}}}})(req::HTTP.Messages.Request; redirect::Bool, redirect_limit::Int64, redirect_method::Nothing, forwardheaders::Bool, response_stream::Nothing, kw::@Kwargs{verbose::Int64}) │ │ @ HTTP.RedirectRequest ~/.julia/packages/HTTP/JcAHX/src/clientlayers/RedirectRequest.jl:25 │ │ [11] redirects │ │ @ ~/.julia/packages/HTTP/JcAHX/src/clientlayers/RedirectRequest.jl:14 [inlined] │ │ [12] (::HTTP.MessageRequest.var"#makerequest#3"{HTTP.MessageRequest.var"#makerequest#1#4"{HTTP.RedirectRequest.var"#redirects#3"{HTTP.RedirectRequest.var"#redirects#1#4"{HTTP.HeadersRequest.var"#defaultheaders#2"{HTTP.HeadersRequest.var"#defaultheaders#1#3"{HTTP.CookieRequest.var"#managecookies#4"{HTTP.CookieRequest.var"#managecookies#1#5"{HTTP.RetryRequest.var"#manageretries#3"{HTTP.RetryRequest.var"#manageretries#1#4"{HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}}}}}}}}}})(method::String, url::URIs.URI, headers::Nothing, body::Vector{UInt8}; copyheaders::Bool, response_stream::Nothing, http_version::HTTP.Strings.HTTPVersion, verbose::Int64, kw::@Kwargs{}) │ │ @ HTTP.MessageRequest ~/.julia/packages/HTTP/JcAHX/src/clientlayers/MessageRequest.jl:35 │ │ [13] makerequest │ │ @ ~/.julia/packages/HTTP/JcAHX/src/clientlayers/MessageRequest.jl:24 [inlined] │ │ [14] request(stack::HTTP.MessageRequest.var"#makerequest#3"{HTTP.MessageRequest.var"#makerequest#1#4"{HTTP.RedirectRequest.var"#redirects#3"{HTTP.RedirectRequest.var"#redirects#1#4"{HTTP.HeadersRequest.var"#defaultheaders#2"{HTTP.HeadersRequest.var"#defaultheaders#1#3"{HTTP.CookieRequest.var"#managecookies#4"{HTTP.CookieRequest.var"#managecookies#1#5"{HTTP.RetryRequest.var"#manageretries#3"{HTTP.RetryRequest.var"#manageretries#1#4"{HTTP.ConnectionRequest.var"#connections#4"{HTTP.ConnectionRequest.var"#connections#1#5"{HTTP.TimeoutRequest.var"#timeouts#3"{HTTP.TimeoutRequest.var"#timeouts#1#4"{HTTP.ExceptionRequest.var"#exceptions#2"{HTTP.ExceptionRequest.var"#exceptions#1#3"{typeof(HTTP.StreamRequest.streamlayer)}}}}}}}}}}}}}}}}, method::String, url::String, h::Nothing, b::Vector{UInt8}, q::Nothing; headers::Nothing, body::Vector{UInt8}, query::Nothing, kw::@Kwargs{}) │ │ @ HTTP ~/.julia/packages/HTTP/JcAHX/src/HTTP.jl:457 │ │ [15] request(stack::Function, method::String, url::String, h::Nothing, b::Vector{UInt8}, q::Nothing) │ │ @ HTTP ~/.julia/packages/HTTP/JcAHX/src/HTTP.jl:455 │ │ [16] #request#20 │ │ @ ~/.julia/packages/HTTP/JcAHX/src/HTTP.jl:315 [inlined] │ │ [17] request (repeats 2 times) │ │ @ ~/.julia/packages/HTTP/JcAHX/src/HTTP.jl:313 [inlined] │ │ [18] get │ │ @ ~/.julia/packages/HTTP/JcAHX/src/HTTP.jl:518 [inlined] │ │ [19] #51 │ │ @ ~/.julia/packages/HTTP/JcAHX/src/precompile.jl:36 [inlined] │ │ [20] withenv(::HTTP.var"#51#54"{String}, ::Pair{String, Union{Nothing, String}}, ::Vararg{Pair{String, Union{Nothing, String}}}) │ │ @ Base ./env.jl:265 │ │ [21] macro expansion │ │ @ ~/.julia/packages/HTTP/JcAHX/src/precompile.jl:35 [inlined] │ │ [22] macro expansion │ │ @ ~/.julia/packages/PrecompileTools/L8A3n/src/workloads.jl:78 [inlined] │ │ [23] macro expansion │ │ @ ~/.julia/packages/HTTP/JcAHX/src/precompile.jl:34 [inlined] │ │ [24] macro expansion │ │ @ ~/.julia/packages/PrecompileTools/L8A3n/src/workloads.jl:140 [inlined] │ │ [25] top-level scope │ │ @ ~/.julia/packages/HTTP/JcAHX/src/precompile.jl:4 │ │ [26] include(mod::Module, _path::String) │ │ @ Base ./Base.jl:562 │ │ [27] include │ │ @ ~/.julia/packages/HTTP/JcAHX/src/HTTP.jl:1 [inlined] │ │ [28] top-level scope │ │ @ ~/.julia/packages/HTTP/JcAHX/src/HTTP.jl:643 │ │ [29] include │ │ @ ./Base.jl:562 [inlined] │ │ [30] include_package_for_output(pkg::Base.PkgId, input::String, depot_path::Vector{String}, dl_load_path::Vector{String}, load_path::Vector{String}, concrete_deps::Vector{Pair{Base.PkgId, UInt128}}, source::Nothing) │ │ @ Base ./loading.jl:2881 │ │ [31] top-level scope │ │ @ stdin:6 │ │ [32] eval │ │ @ ./boot.jl:430 [inlined] │ │ [33] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String) │ │ @ Base ./loading.jl:2734 │ │ [34] include_string │ │ @ ./loading.jl:2744 [inlined] │ │ [35] exec_options(opts::Base.JLOptions) │ │ @ Base ./client.jl:321 │ │ [36] _start() │ └ @ Base ./client.jl:531 │ │ [pid 1497] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. │ │ [pid 1497] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. │ │ [pid 1497] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. │ │ [pid 1497] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. │ │ [pid 1497] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. │ │ [pid 1497] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. │ │ [pid 1497] waiting for IO to finish: │ Handle type uv_handle_t->data │ This means that a package has started a background task or event source that has not finished running. For precompilation to complete successfully, the event source needs to be closed explicitly. See the developer documentation on fixing precompilation hangs for more help. └ Parsed args: binfile => /tmp/jl_pil1KR/Data.zst csvfile => /tmp/jl_pil1KR/Data.csv 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 ####### Binarization of MM (Julia API) ####### ####### Binarization of MM (Command line) ####### Parsed args: mmfile => /tmp/jl_pil1KR/Data.mtx binfile => /tmp/jl_pil1KR/Data.mtx.zst ####### Binarization of Binary COO (Julia API) ####### ####### Binarization of Binary COO (Command line) ####### Parsed args: binfile => /tmp/jl_pil1KR/Data.bincoo.zst bincoofile => /tmp/jl_pil1KR/Data.bincoo ####### Summarization (Julia API) ####### 1 / 2 : Column-wise statistics are calculated... 2 / 2 : Row-wise statistics are calculated... ####### Summarization (Command line) ####### Parsed args: pseudocount => 1.0 binfile => /tmp/jl_pil1KR/Data.zst mode => dense outdir => /tmp/jl_JKLrxq 1 / 2 : Column-wise statistics are calculated... 2 / 2 : Row-wise statistics are calculated... ####### Summarization (Julia API) ####### 1 / 2 : Column-wise statistics are calculated... 2 / 2 : Row-wise statistics are calculated... ####### Summarization (Command line) ####### Parsed args: pseudocount => 1.0 binfile => /tmp/jl_pil1KR/Data.mtx.zst mode => sparse_mm outdir => /tmp/jl_1XEcPQ 1 / 2 : Column-wise statistics are calculated... 2 / 2 : Row-wise statistics are calculated... ####### HVG (Julia API) ####### Highly Variable Genes are calculated... ####### HVG (Command line) ####### Parsed args: rowmeanlist => /tmp/jl_JKLrxq/Feature_Means.csv binfile => /tmp/jl_pil1KR/Data.zst rowcv2list => /tmp/jl_JKLrxq/Feature_CV2s.csv rowvarlist => /tmp/jl_JKLrxq/Feature_Vars.csv outdir => /tmp/jl_JKLrxq Highly Variable Genes are calculated... ####### Filtering (Julia API) ####### ####### Filtering (Command line) ####### Parsed args: samplelist => /tmp/jl_JKLrxq/Sample_NoCounts.csv thr1 => 10 direct2 => + direct1 => + thr2 => 10 outdir => /tmp/jl_JKLrxq input => /tmp/jl_pil1KR/Data.zst featurelist => /tmp/jl_JKLrxq/Feature_Means.csv Parsed args: samplelist => thr1 => 10 direct2 => + direct1 => + thr2 => 10 outdir => /tmp/jl_JKLrxq input => /tmp/jl_pil1KR/Data.zst featurelist => /tmp/jl_JKLrxq/Feature_Means.csv Parsed args: samplelist => /tmp/jl_JKLrxq/Sample_NoCounts.csv thr1 => 10 direct2 => + direct1 => + thr2 => 10 outdir => /tmp/jl_JKLrxq input => /tmp/jl_pil1KR/Data.zst featurelist => ####### GD (Julia API) ####### ####### GD (Command line) ####### Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "robbins-monro" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "momentum" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => "/tmp/jl_JKLrxq/Eigen_vectors.csv" colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "nag" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => "/tmp/jl_JKLrxq/Loadings.csv" cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "adagrad" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false ####### Oja (Julia API) ####### Progress: 1%|▎ | ETA: 0:03:07 Progress: 1%|▍ | ETA: 0:04:31 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:02:52 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:02:33 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:05:26 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 ####### Oja (Command line) ####### Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "robbins-monro" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:04:59 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "momentum" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:05:18 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "nag" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:06:51 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "adagrad" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:06:37 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 ####### SGD (Julia API) ####### Progress: 1%|▎ | ETA: 0:03:04 Progress: 1%|▍ | ETA: 0:03:59 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:03:35 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:03:39 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:05:22 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 ####### SGD (Command line) ####### Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "robbins-monro" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:04:47 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "momentum" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:05:12 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "nag" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:06:55 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "adagrad" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:06:33 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 ####### CCIPCA (Julia API) ####### Progress: 1%|▎ | ETA: 0:01:18 Progress: 1%|▍ | ETA: 0:01:45 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 ####### CCIPCA (Command line) ####### Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 offsetStoch => 1.0f-15 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:07:35 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 ####### RSGD (Julia API) ####### Progress: 1%|▎ | ETA: 0:10:00 Progress: 1%|▍ | ETA: 0:08:35 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 Progress: 1%|▎ | ETA: 0:03:34 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Progress: 1%|▎ | ETA: 0:05:33 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:05:24 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 ####### RSGD (Command line) ####### Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "robbins-monro" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:08:55 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "momentum" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:09:28 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "nag" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:09:57 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "adagrad" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:10:36 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 ####### SVRG (Julia API) ####### Progress: 1%|▎ | ETA: 0:05:29 Progress: 1%|▍ | ETA: 0:06:50 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 Progress: 1%|▎ | ETA: 0:05:33 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:07:37 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Progress: 1%|▎ | ETA: 0:12:17 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 ####### SVRG (Command line) ####### Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "robbins-monro" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:12:51 Progress: 1%|▍ | ETA: 0:10:51 Progress: 100%|█████████████████████████████████████████| Time: 0:00:06 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "momentum" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:12:50 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "nag" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:14:04 Progress: 100%|█████████████████████████████████████████| Time: 0:00:06 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "adagrad" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:13:57 Progress: 100%|█████████████████████████████████████████| Time: 0:00:06 ####### RSVRG (Julia API) ####### Progress: 1%|▎ | ETA: 0:05:23 Progress: 1%|▍ | ETA: 0:06:46 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 Progress: 1%|▎ | ETA: 0:05:17 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Progress: 1%|▎ | ETA: 0:07:48 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Progress: 1%|▎ | ETA: 0:12:13 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 ####### RSVRG (Command line) ####### Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "robbins-monro" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:16:58 Progress: 1%|▍ | ETA: 0:13:40 Progress: 100%|█████████████████████████████████████████| Time: 0:00:08 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "momentum" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:17:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:07 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "nag" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:17:27 Progress: 100%|█████████████████████████████████████████| Time: 0:00:07 Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" upper => 1.0f38 scheduling => "adagrad" offsetStoch => 1.0f-6 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 numbatch => 100 g => 0.9f0 offsetFull => 1.0f-20 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "1" evalfreq => 5000 stepsize => "1.0e-15" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 epsilon => 1.0f-8 dim => "3" perm => false Progress: 1%|▎ | ETA: 0:18:06 Progress: 100%|█████████████████████████████████████████| Time: 0:00:07 ####### Orthogonal Iteration (Julia API) ####### Progress: 0%|▏ | ETA: 0:08:31 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 ####### Orthogonal Iteration (Command line) ####### Parsed args: logdir => "/tmp/jl_JKLrxq" upper => 1.0f38 scale => "ftt" outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "3" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 dim => "3" perm => false Progress: 0%|▏ | ETA: 0:21:53 Progress: 33%|█████████████▊ | ETA: 0:00:09 Progress: 100%|█████████████████████████████████████████| Time: 0:00:05 ####### Randomized Block Krylov Iteration (Julia API) ####### Progress: 50%|████████████████████▋ | ETA: 0:00:00 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 Q' A Q' A' A svd(Q' A' A) Q*U ####### Randomized Block Krylov Iteration (Command line) ####### Parsed args: logdir => "/tmp/jl_JKLrxq" upper => 1.0f38 scale => "ftt" outdir => "/tmp/jl_JKLrxq" rowvarlist => "" lower => 0 initV => nothing cper => 1.0f0 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "3" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 dim => "3" perm => false Progress: 0%|▏ | ETA: 0:21:01 Progress: 33%|█████████████▊ | ETA: 0:00:08 Progress: 100%|█████████████████████████████████████████| Time: 0:00:04 Q' A Q' A' A svd(Q' A' A) Q*U ####### ARNOLDI (Julia API) ####### Progress: 20%|████████▎ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 ####### ARNOLDI (Command line) ####### Parsed args: scale => "ftt" outdir => "/tmp/jl_JKLrxq" rowvarlist => "" cper => 1.0f0 pseudocount => 1.0f0 colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "3" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 dim => "3" perm => false Progress: 67%|███████████████████████████▍ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 ####### LANCZOS (Julia API) ####### ####### LANCZOS (Command line) ####### Parsed args: scale => "ftt" outdir => "/tmp/jl_JKLrxq" rowvarlist => "" cper => 1.0f0 pseudocount => 1.0f0 colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" numepoch => "3" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" expvar => 0.1f0 dim => "3" perm => false Progress: 67%|███████████████████████████▍ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 ####### HALKO (Julia API) ####### Random Projection : Y = A Ω Progress: 1%|▎ | ETA: 0:00:35 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 QR factorization : Q = qr(Y) Subspace iterations (1/2) : qr(A' Q) qr(A' Q) Subspace iterations (2/2) : Y = qr(A qr(A' Q)) Q = qr(Y) Subspace iterations (1/2) : qr(A' Q) qr(A' Q) Subspace iterations (2/2) : Y = qr(A qr(A' Q)) Q = qr(Y) Subspace iterations (1/2) : qr(A' Q) qr(A' Q) Subspace iterations (2/2) : Y = qr(A qr(A' Q)) Q = qr(Y) Calculation of small matrix : B = Q' A SVD with small matrix : svd(B) ####### HALKO (Command line) ####### Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" noversamples => 5 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" initV => nothing cper => 1.0f0 niter => 3 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" dim => "3" perm => false Random Projection : Y = A Ω Progress: 1%|▎ | ETA: 0:06:24 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 QR factorization : Q = qr(Y) Subspace iterations (1/2) : qr(A' Q) Progress: 1%|▎ | ETA: 0:01:10 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 qr(A' Q) Subspace iterations (2/2) : Y = qr(A qr(A' Q)) Q = qr(Y) Subspace iterations (1/2) : qr(A' Q) qr(A' Q) Subspace iterations (2/2) : Y = qr(A qr(A' Q)) Q = qr(Y) Subspace iterations (1/2) : qr(A' Q) qr(A' Q) Subspace iterations (2/2) : Y = qr(A qr(A' Q)) Q = qr(Y) Calculation of small matrix : B = Q' A SVD with small matrix : svd(B) ####### ALGORITHM971 (Julia API) ####### Random Projection : Y = A Ω LU factorization : L = lu(Y) Normalized power iterations (1/3) : A' L L = lu(A' L) Normalized power iterations (2/3) : Y = A lu(A' L) Normalized power iterations (3/3) : L = lu(A lu(A' L)) Normalized power iterations (1/3) : A' L L = lu(A' L) Normalized power iterations (2/3) : Y = A lu(A' L) Normalized power iterations (3/3) : L = lu(A lu(A' L)) Normalized power iterations (1/3) : A' L L = lu(A' L) Normalized power iterations (2/3) : Y = A lu(A' L) QR factorization (3/3) : Q = qr(A lu(A' L)) Calculation of small matrix : B = Q' A SVD with small matrix : svd(B) ####### ALGORITHM971 (Command line) ####### Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" noversamples => 5 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" initV => nothing cper => 1.0f0 niter => 3 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" dim => "3" perm => false Random Projection : Y = A Ω Progress: 1%|▎ | ETA: 0:06:25 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 LU factorization : L = lu(Y) Normalized power iterations (1/3) : A' L Progress: 1%|▎ | ETA: 0:01:11 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 L = lu(A' L) Normalized power iterations (2/3) : Y = A lu(A' L) Normalized power iterations (3/3) : L = lu(A lu(A' L)) Normalized power iterations (1/3) : A' L L = lu(A' L) Normalized power iterations (2/3) : Y = A lu(A' L) Normalized power iterations (3/3) : L = lu(A lu(A' L)) Normalized power iterations (1/3) : A' L L = lu(A' L) Normalized power iterations (2/3) : Y = A lu(A' L) QR factorization (3/3) : Q = qr(A lu(A' L)) Calculation of small matrix : B = Q' A SVD with small matrix : svd(B) ####### SINGLEPASS (Julia API) ####### Random Projection : Y = A Ω, Ytilde = A' Ωtilde QR factorization : Q = qr(Y), Qtilde = qr(Ytilde) Solve linear equation : Ωtilde' Q B = Ytilde' Qtilde for B SVD with small matrix : svd(B) ####### SINGLEPASS (Command line) ####### Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" noversamples => 5 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" initV => nothing cper => 1.0f0 niter => 3 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" dim => "3" perm => false Random Projection : Y = A Ω, Ytilde = A' Ωtilde Progress: 1%|▎ | ETA: 0:01:53 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 QR factorization : Q = qr(Y), Qtilde = qr(Ytilde) Solve linear equation : Ωtilde' Q B = Ytilde' Qtilde for B SVD with small matrix : svd(B) ####### SINGLEPASS2 (Julia API) ####### Random Projection : G = A Ω, H = A' A Ω Subspace iterations (1/2) : Q = qr(Yi) Subspace iterations (2/2) : Q = qr(Qi - Q(Q' Qi)) Subspace iterations (1/2) : Q = qr(Yi) Subspace iterations (2/2) : Q = qr(Qi - Q(Q' Qi)) Subspace iterations (1/2) : Q = qr(Yi) Subspace iterations (2/2) : Q = qr(Qi - Q(Q' Qi)) SVD with small matrix : svd(B) ####### SINGLEPASS2 (Command line) ####### Parsed args: logdir => "/tmp/jl_JKLrxq" scale => "ftt" noversamples => 5 outdir => "/tmp/jl_JKLrxq" rowvarlist => "" initV => nothing cper => 1.0f0 niter => 3 pseudocount => 1.0f0 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.zst" rowmeanlist => "/tmp/jl_JKLrxq/Feature_FTTMeans.csv" dim => "3" perm => false Random Projection : G = A Ω, H = A' A Ω Progress: 1%|▎ | ETA: 0:01:47 Progress: 100%|█████████████████████████████████████████| Time: 0:00:01 Subspace iterations (1/2) : Q = qr(Yi) Subspace iterations (2/2) : Q = qr(Qi - Q(Q' Qi)) Subspace iterations (1/2) : Q = qr(Yi) Subspace iterations (2/2) : Q = qr(Qi - Q(Q' Qi)) Subspace iterations (1/2) : Q = qr(Yi) Subspace iterations (2/2) : Q = qr(Qi - Q(Q' Qi)) SVD with small matrix : svd(B) ####### Sparse Randomized SVD (Julia API) ####### Initial Setting... Progress: 40%|████████████████▍ | ETA: 0:00:05 Progress: 100%|█████████████████████████████████████████| Time: 0:00:03 Random Projection : Y = A Ω Progress: 40%|████████████████▍ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 LU factorization : L = lu(Y) ##### Iteration 1 / 3 ##### Normalized power iterations (1/3) : A' L Progress: 40%|████████████████▍ | ETA: 0:00:00 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 Normalized power iterations (2/3) : A A' L LU decomposition (3/3) : L = lu(A A' L) ##### Iteration 2 / 3 ##### Normalized power iterations (1/3) : A' L Normalized power iterations (2/3) : A A' L LU decomposition (3/3) : L = lu(A A' L) ##### Iteration 3 / 3 ##### Normalized power iterations (1/3) : A' L Normalized power iterations (2/3) : A A' L QR decomposition (3/3) : Q = qr(A A' L) Small matrix computation : B = Q' A Progress: 40%|████████████████▍ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 SVD : B = U Σ V' ####### Sparse Randomized SVD (Command line) ####### Parsed args: logdir => "/tmp/jl_1XEcPQ" scale => "ftt" noversamples => 5 outdir => "/tmp/jl_1XEcPQ" rowvarlist => "" initV => nothing cper => 1.0f0 niter => 3 initW => nothing colsumlist => "" input => "/tmp/jl_pil1KR/Data.mtx.zst" rowmeanlist => "/tmp/jl_1XEcPQ/Feature_FTTMeans.csv" dim => "3" perm => false chunksize => "51" Initial Setting... Progress: 40%|████████████████▍ | ETA: 0:00:03 Progress: 100%|█████████████████████████████████████████| Time: 0:00:02 Random Projection : Y = A Ω Progress: 40%|████████████████▍ | ETA: 0:00:00 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 LU factorization : L = lu(Y) ##### Iteration 1 / 3 ##### Normalized power iterations (1/3) : A' L Progress: 40%|████████████████▍ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 Normalized power iterations (2/3) : A A' L LU decomposition (3/3) : L = lu(A A' L) ##### Iteration 2 / 3 ##### Normalized power iterations (1/3) : A' L Normalized power iterations (2/3) : A A' L LU decomposition (3/3) : L = lu(A A' L) ##### Iteration 3 / 3 ##### Normalized power iterations (1/3) : A' L Normalized power iterations (2/3) : A A' L QR decomposition (3/3) : Q = qr(A A' L) Small matrix computation : B = Q' A Progress: 40%|████████████████▍ | ETA: 0:00:01 Progress: 100%|█████████████████████████████████████████| Time: 0:00:00 SVD : B = U Σ V' ####### Exact Out-of-Core PCA (Dense, Julia API) ####### # 1. Column-wise Mean # 2. Out-of-Core Covariance Matrix Calculation Progress: 2 Time: 0:00:01 Progress: 6 Time: 0:00:01 # 3. PC Score (Z = XV) is being calculated. # 4. Out-of-Core PC Score Calculation # 5. Delayed Centering Correction # 6. Normalize W and Calculate Eigenvalues ####### Exact Out-of-Core PCA (Dense, Command line) ####### Parsed args: pseudocount => 1.0f0 mode => "dense" dim => "3" outdir => "/tmp/jl_JKLrxq" input => "/tmp/jl_pil1KR/Data.zst" scale => "raw" chunksize => "51" # 1. Column-wise Mean # 2. Out-of-Core Covariance Matrix Calculation Progress: 2 Time: 0:00:00 Progress: 6 Time: 0:00:00 # 3. PC Score (Z = XV) is being calculated. # 4. Out-of-Core PC Score Calculation # 5. Delayed Centering Correction # 6. Normalize W and Calculate Eigenvalues ####### Exact Out-of-Core PCA (MM-Sparse, Julia API) ####### # 1. Column-wise Mean # 2. Out-of-Core Covariance Matrix Calculation Progress: 2 Time: 0:00:02 Progress: 6 Time: 0:00:02 # 3. PC Score (Z = XV) is being calculated. # 4. Out-of-Core PC Score Calculation Progress: 2 Time: 0:00:00 Progress: 6 Time: 0:00:00 # 5. Delayed Centering Correction # 6. Normalize W and Calculate Eigenvalues ####### Exact Out-of-Core PCA (MM-Sparse, Command line) ####### Parsed args: pseudocount => 1.0f0 mode => "sparse_mm" dim => "3" outdir => "/tmp/jl_1XEcPQ" input => "/tmp/jl_pil1KR/Data.mtx.zst" scale => "raw" chunksize => "51" # 1. Column-wise Mean # 2. Out-of-Core Covariance Matrix Calculation Progress: 2 Time: 0:00:00 Progress: 6 Time: 0:00:00 # 3. PC Score (Z = XV) is being calculated. # 4. Out-of-Core PC Score Calculation Progress: 2 Time: 0:00:00 Progress: 6 Time: 0:00:00 # 5. Delayed Centering Correction # 6. Normalize W and Calculate Eigenvalues ####### Exact Out-of-Core PCA (BinCOO-Sparse, Julia API) ####### # 1. Column-wise Mean # 2. Out-of-Core Covariance Matrix Calculation # 3. PC Score (Z = XV) is being calculated. # 4. Out-of-Core PC Score Calculation Progress: 2 Time: 0:00:00 Progress: 6 Time: 0:00:00 # 5. Delayed Centering Correction # 6. Normalize W and Calculate Eigenvalues ####### Exact Out-of-Core PCA (BinCOO-Sparse, Command line) ####### Parsed args: pseudocount => 1.0f0 mode => "sparse_bincoo" dim => "3" outdir => "/tmp/jl_1XEcPQ" input => "/tmp/jl_pil1KR/Data.bincoo.zst" scale => "raw" chunksize => "51" # 1. Column-wise Mean # 2. Out-of-Core Covariance Matrix Calculation Progress: 2 Time: 0:00:00 Progress: 6 Time: 0:00:00 # 3. PC Score (Z = XV) is being calculated. # 4. Out-of-Core PC Score Calculation Progress: 2 Time: 0:00:00 Progress: 6 Time: 0:00:00 # 5. Delayed Centering Correction # 6. Normalize W and Calculate Eigenvalues Inner product (Dense): 0.3254005869081371 Inner product (Sparse MM): 1.0000000274167145 Inner product (Sparse BinCOO): 1.0000000274167145 Test Failed at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/test/test_exact_ooc_pca.jl:84 Expression: inner_prod1 > 0.7 Evaluated: 0.3254005869081371 > 0.7 ERROR: LoadError: There was an error during testing in expression starting at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/test/test_exact_ooc_pca.jl:84 in expression starting at /home/pkgeval/.julia/packages/OnlinePCA/AhPWT/test/runtests.jl:83 Testing failed after 1437.66s ERROR: LoadError: Package OnlinePCA errored during testing Stacktrace: [1] pkgerror(msg::String) @ Pkg.Types /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Types.jl:68 [2] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, julia_args::Cmd, test_args::Cmd, test_fn::Nothing, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool) @ Pkg.Operations /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2128 [3] test @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/Operations.jl:2011 [inlined] [4] test(ctx::Pkg.Types.Context, pkgs::Vector{Pkg.Types.PackageSpec}; coverage::Bool, test_fn::Nothing, julia_args::Cmd, test_args::Cmd, force_latest_compatible_version::Bool, allow_earlier_backwards_compatible_versions::Bool, allow_reresolve::Bool, kwargs::@Kwargs{io::IOContext{IO}}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:481 [5] test(pkgs::Vector{Pkg.Types.PackageSpec}; io::IOContext{IO}, kwargs::@Kwargs{julia_args::Cmd}) @ Pkg.API /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:159 [6] test @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:147 [inlined] [7] #test#74 @ /opt/julia/share/julia/stdlib/v1.11/Pkg/src/API.jl:146 [inlined] [8] top-level scope @ /PkgEval.jl/scripts/evaluate.jl:219 in expression starting at /PkgEval.jl/scripts/evaluate.jl:210 PkgEval failed after 2055.69s: package tests unexpectedly errored